LOCUS       NZ_CP120172             3123 bp    DNA     circular CON 06-JAN-2024
DEFINITION  Staphylococcus aureus strain Dog022 plasmid unnamed2, complete
            sequence.
ACCESSION   NZ_CP120172
VERSION     NZ_CP120172.1
DBLINK      BioProject: PRJNA224116
            BioSample: SAMN33696767
            Assembly: GCF_034014015.1
KEYWORDS    RefSeq.
SOURCE      Staphylococcus aureus
  ORGANISM  Staphylococcus aureus
            Bacteria; Bacillota; Bacilli; Bacillales; Staphylococcaceae;
            Staphylococcus.
REFERENCE   1  (bases 1 to 3123)
  AUTHORS   Akarsu,H., Liljander,A., Lacasta,A., Ssajjakambwe,P., Brodard,I.,
            Cherbuin,J., Kuhnert,P., Perreten,V., Torres Puig,S., Labroussaa,F.
            and Jores,J.
  TITLE     Canine Staphylococcaceae circulating in a Kenyan animal shelter
  JOURNAL   Unpublished
REFERENCE   2  (bases 1 to 3123)
  AUTHORS   Akarsu,H., Liljander,A., Lacasta,A., Ssajjakambwe,P., Brodard,I.,
            Cherbuin,J., Kuhnert,P., Perreten,V., Torres Puig,S., Labroussaa,F.
            and Jores,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (19-DEC-2023) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3001, Switzerland
  REMARK    Annotation added by database at the request of the submitter
REFERENCE   3  (bases 1 to 3123)
  AUTHORS   Akarsu,H., Liljander,A., Lacasta,A., Ssajjakambwe,P., Brodard,I.,
            Cherbuin,J., Kuhnert,P., Perreten,V., Torres Puig,S., Labroussaa,F.
            and Jores,J.
  TITLE     Direct Submission
  JOURNAL   Submitted (13-MAR-2023) Institute of Veterinary Bacteriology,
            University of Bern, Langgassstrasse 122, Bern 3001, Switzerland
COMMENT     ##Genome-Assembly-Data-START##
            Assembly Date                     :: AUG-2022
            Assembly Method                   :: Flye v. v2.8
            Genome Representation             :: Full
            Expected Final Version            :: Yes
            Genome Coverage                   :: 388x
            Sequencing Technology             :: PacBio Sequel II
            ##Genome-Assembly-Data-END##
            ##Genome-Annotation-Data-START##
            Annotation Provider               :: NCBI RefSeq
            Annotation Date                   :: 01/06/2024 10:55:16
            Annotation Pipeline :: NCBI Prokaryotic Genome Annotation Pipeline
            (PGAP)
            Annotation Method :: Best-placed reference protein set; GeneMarkS-2+
            Annotation Software revision      :: 6.6
            Features Annotated                :: Gene; CDS; rRNA; tRNA; ncRNA
            Genes (total)                     :: 2,834
            CDSs (total)                      :: 2,752
            Genes (coding)                    :: 2,666
            CDSs (with protein)               :: 2,666
            Genes (RNA)                       :: 82
            rRNAs                             :: 7, 6, 6 (5S, 16S, 23S)
            complete rRNAs                    :: 7, 6, 6 (5S, 16S, 23S)
            tRNAs                             :: 59
            ncRNAs                            :: 4
            Pseudo Genes (total)              :: 86
            CDSs (without protein)            :: 86
            Pseudo Genes (ambiguous residues) :: 0 of 86
            Pseudo Genes (frameshifted)       :: 45 of 86
            Pseudo Genes (incomplete)         :: 35 of 86
            Pseudo Genes (internal stop)      :: 21 of 86
            Pseudo Genes (multiple problems)  :: 15 of 86
            ##Genome-Annotation-Data-END##
            REFSEQ INFORMATION: The reference sequence is identical to
            CP120172.1.
            The annotation was added by the NCBI Prokaryotic Genome Annotation
            Pipeline (PGAP). Information about PGAP can be found here:
            https://www.ncbi.nlm.nih.gov/genome/annotation_prok/
            COMPLETENESS: full length.
FEATURES             Location/Qualifiers
     source          1..3123
                     /organism="Staphylococcus aureus"
                     /mol_type="genomic DNA"
                     /strain="Dog022"
                     /isolation_source="nasal swab"
                     /host="Canis lupus familiaris"
                     /db_xref="taxon:1280"
                     /plasmid="unnamed2"
                     /geo_loc_name="Kenya:Nairobi"
                     /lat_lon="1.3345 S 36.7331 E"
                     /collection_date="2015-06-27"
                     /collected_by="Joerg Jores, Anna Lacasta, Anne Liljander,
                     Paul Ssajjakambwe (International Livestock Research
                     Institute, ILRI)"
     gene            complement(243..431)
                     /locus_tag="P3U17_RS14160"
                     /old_locus_tag="P3U17_14160"
     CDS             complement(243..431)
                     /locus_tag="P3U17_RS14160"
                     /old_locus_tag="P3U17_14160"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001030810.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_001039248.1"
                     /translation="MNKNTVLDEGYVIATILNVFFLLGLIFISHLENLYILIPYVILMG
                     INAIYLVVKVMNFKKNN"
                     /name="hypothetical protein"
     gene            complement(1015..2010)
                     /locus_tag="P3U17_RS14165"
                     /old_locus_tag="P3U17_14165"
     CDS             complement(1015..2010)
                     /locus_tag="P3U17_RS14165"
                     /old_locus_tag="P3U17_14165"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_001199895.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="protein rep"
                     /protein_id="WP_001199892.1"
                     /translation="MQYNTTRSITENQDNKTLKDMTKSGKQRPWREKKIDNVSYADILE
                     ILKIKKAFNVKQCGNILEFKPTDEGYLKLHKTWFCKSKLCPVCNWRRAMKNSYQAQKVI
                     EKVIKEKPKARWLFLTLSTKNAIDGDTLEQSLKHLTKAFDRLSRYKKVKQNLVGFMRST
                     EVTVNKNDGSYNQHMHVLLCVENAYFRKKENYITQEEWVNLWQRALQVDYRPVANVKAI
                     KPNRKGDKDIESAIKETSKYSVKSSDFLTDDDEKNQEIVSDLEKGLYRKRMLSYGGLLK
                     QKHKILNLDDVEDGNLINASDEDKTTDEEEKAHSITAIWNFEKQNYYLRH"
                     /name="protein rep"
     gene            2462..3043
                     /locus_tag="P3U17_RS14170"
                     /old_locus_tag="P3U17_14170"
     CDS             2462..3043
                     /locus_tag="P3U17_RS14170"
                     /old_locus_tag="P3U17_14170"
                     /inference="COORDINATES: similar to AA
                     sequence:RefSeq:WP_000991705.1"
                     /note="Derived by automated computational analysis using
                     gene prediction method: Protein Homology."
                     /codon_start=1
                     /transl_table=11
                     /product="hypothetical protein"
                     /protein_id="WP_000991705.1"
                     /translation="MNAIQNSISLRKILVVSLSILTILSMVLDFNFKEAQAQNKNNIAD
                     KNVETLNEKEIEKELKYIYGKIIILDKDGTAKDVNLENAKSRYGYVPEGFQKLKNDIEN
                     KKKTSSISPRAVGGNYKNSGDCFYSEVLNSYGELLTGNIITAVFEDVKAKNLKGVAKKL
                     AKIGIKGNLAGIAATMVSKDVQCNLKYGLL"
                     /name="hypothetical protein"
     Typing          complement(781..945)
                     /name="MOBV"
                     /typing="oriT"
                     /tool="MOB-suite"
                     /identity="100.0"
                     /coverage="100.0"
                     /evalue="2.42e-81"
     Typing          complement(1016..2010)
                     /name="rep_cluster_1017"
                     /typing="replicon"
                     /tool="MOB-suite"
                     /identity="99.9"
                     /coverage="100.0"
                     /evalue="0.0"
ORIGIN
        1 agctcacgct atgccgacat tcgtctgcaa gtttagttaa gggttcttct caacatcaat
       61 aaattttctc ggcataaatg cgtcgtctat tttttattat cttcatgata atcatatttt
      121 tcttccatct cgtcaaaagc atcatcttta tagaaaaaca aaaagtaagc aacaacacca
      181 ataggaataa aaaaacagtg tgaaaacaag aagaaactcg tttcaaaatc ccctcaaata
      241 ttctaattat tctttttgaa attcataacc ttaacaacca aataaatagc atttattccc
      301 atcaaaataa catacggaat taatatatat aaattttcca aatgagatat aaaaattaat
      361 ccaagtaaaa agaaaacatt taaaatagtt gctataacgt aaccttcatc taacactgtg
      421 tttttattca aaataaacac tcctttttta aaaaacttta tcacaagact tactcaaatt
      481 ataaatacct ttattttgag ttttaagggg gtattttaaa ggtttagggg ggtatcatat
      541 aggtttttaa cttaaaaata tatacaagct cttaaaacgc aaatatgagc caaataaata
      601 tatggtaatt tcacaaacaa aaatttcagc aaaaccagtg actaattttt taacactgcc
      661 catttacatg caaattaaaa attagcataa aatcctttaa aacttccaca tgtttttcta
      721 aattcctgca gggcgttttt tatcaaaaat cgagaatttt taatttttct ctaaaaactc
      781 cgtaagagca taaggagaat ttgctatcat tcaaaaatga taggtctggc aaagccagac
      841 attccagggg ttttaaggta ttttaaagtg atatcataca aagctgtact gtcttatttt
      901 tgtgacacaa tatattgcgt ttgtcttatt tttgtgacac tacatacagc atttgtcaca
      961 aaaataagac agtacttttt tataaaaaat caacaaaaaa gacattagtc aacactaatg
     1021 tcttaaataa taattttgct tttcgaaatt ccaaattgcg gtaattgaat gtgctttttc
     1081 ttcttcgtct gttgttttat cttcatcact tgcattaatc aaattaccat cttcgacatc
     1141 gtctaagttt aaaattttat gtttttgttt aagcaatcca ccataactta acatacgttt
     1201 tcgatacaaa cctttttcta aatcacttac aatttcttga tttttttcat catcatcagt
     1261 taaaaaatca gatgatttaa ccgaatattt tgaggtctct ttgattgccg attcaatgtc
     1321 tttatcgcct tttctattcg gtttgatcgc tttaacatta gcaacaggtc gatagtcaac
     1381 ttgtaatgct ctttgccata aattaaccca ttcttcttga gttatataat tctctttttt
     1441 tctaaaatat gcattttcaa cacataacaa aacatgcatg tgctgattat aactaccgtc
     1501 atttttatta acggtaactt ctgttgaacg cataaatcca acaagatttt gtttaacctt
     1561 tttatatcta ctcaacctat caaatgcttt agttagatgc ttcaaacttt gttctaaagt
     1621 atctccatct atcgcatttt ttgttgaaag tgttaaaaac aaccaacgtg cttttggctt
     1681 ttccttaatt actttttcaa tcactttttg agcttgataa ctatttttca tagcacgtct
     1741 ccaattacaa accggacata attttgattt acaaaaccat gtcttatgta acttcaaata
     1801 gccttcatca gttggcttaa attctaaaat attaccacat tgttttacat taaaagcctt
     1861 tttgattttt aaaatttcta gtatatctgc atagcttaca ttatctattt tcttttctct
     1921 ccatgggcgt tgtttcccac ttttcgtcat atcttttaac gttttattat cttgattttc
     1981 ggttatactt ctagtagtat tatattgcat ataaaaagac ccccagtatt atttaagatt
     2041 cgacacctta ataatataac tggggttttt tattgtcaaa ttttcctttc acgcacaaaa
     2101 acacgtttaa acactgtaat atcaacagtt acagctatat atataaaatc gagttatttc
     2161 tatatagtat caagacaaga agaaactcgt tcacactcgt ttcaaaaaac aacctattcc
     2221 ttcttctttt tatgaccctc taaacctaaa taaattaatg tgaaaaccaa tgaataaata
     2281 aaactttcta aaaagtcaaa aggattatca aataaaatcg aattaacaaa attaaaaatt
     2341 aaaaatacag ataataaaat aatcaaaaag taaaaaaact tattcatatt aaactccttt
     2401 gtttttatat gttaatatta tattgaattc atttaaataa caaaacaagg gggcatttac
     2461 aatgaatgca attcaaaaca gtatatcact aagaaagatt ttagtagtat ctttaagtat
     2521 tttaaccata ctttcaatgg tcttggattt taatttcaaa gaagctcaag cccaaaacaa
     2581 aaataacatt gcagataaaa acgttgaaac tttaaacgaa aaagaaattg aaaaagaact
     2641 aaaatacata tatggcaaaa ttattatttt agataaagac ggaacagcta aagatgttaa
     2701 tctagaaaat gccaaatctc gatatggata tgttcctgaa ggattccaaa aactaaaaaa
     2761 cgacatagag aataaaaaga aaactagttc aatatcacct agagcagttg gtgggaacta
     2821 caaaaatagc ggtgactgtt tctattctga agttttaaac tcatatggag aacttttaac
     2881 tggaaacata atcacagcag tttttgaaga tgttaaagcc aaaaacttaa agggcgtagc
     2941 aaaaaaatta gctaaaattg ggataaaagg aaacctagct ggaatcgcag ctactatggt
     3001 ttcgaaggat gtacaatgta atcttaaata cgggttactt tagatactat ttattccaat
     3061 tgctttattg acgttgagcc tcggaaccct taacaatccc aaaacttgtc gcatggtcgg
     3121 ctt
//
